Warning if you Miss ONLY 1 Seconardy Goal and it's in lets say Chapter 3 yet in your second playthrough you get it and Miss a Secondary Goal in Chapter 26 which you got in your first playthrough you still won't get the Achievement.
In brief, you have to get ALL in one Playthrough. *The way you can see which one's you missed is by going to your journal all Secondary are in Gold while the main are in White.*